Question: Heatmap problem
0
10.1 years ago by
hemant ritturaj150 wrote:
Dear All I was trying to make a heatmap using library(gplots) library("gplots") t <-(read.table("target_file",header=TRUE)) Y <-t$ID x<-as.matrix(t[2:7]) heatmap.2(x,col=redgreen(75),Rowv=TRUE,Colv=TRUE,scale="row",key=TRUE, symkey=FALSE, density.info ="none",labRow=Y,labCol=c("control","control","control","stress","stre ss","stress"),trace="none",cexRow=0.5) My problem is, it plots a heatmap which looks very odd, I want to control the size of box it make in heatmap. Using margin=c(12,12) in the function reduces the picture as a whole but not the size of boxes it makes. Can anyone help me making the pretty heatmap I shall be very thankful for your kind help Regards -- Hemant Ritturaj Kushwaha [[alternative HTML version deleted]] • 580 views ADD COMMENTlink modified 10.1 years ago by James W. MacDonald49k • written 10.1 years ago by hemant ritturaj150 Answer: Heatmap problem 0 10.1 years ago by United States James W. MacDonald49k wrote: Hi Hemant, I think you want to read about the arguments 'lhei' and 'lmat', specifically in the last paragraph of the details section of ?heatmap.2. You will also likely want to look at ?layout, which is what these arguments control. Best, Jim hemant ritturaj wrote: > Dear All > > I was trying to make a heatmap using library(gplots) > > library("gplots") > t <-(read.table("target_file",header=TRUE)) > Y <-t$ID > x<-as.matrix(t[2:7]) > heatmap.2(x,col=redgreen(75),Rowv=TRUE,Colv=TRUE,scale="row",key=TRU E,symkey=FALSE, > density.info > ="none",labRow=Y,labCol=c("control","control","control","stress","st ress","stress"),trace="none",cexRow=0.5) > > My problem is, it plots a heatmap which looks very odd, I want to control > the size of box it make in heatmap. > > Using margin=c(12,12) in the function reduces the picture as a whole but not > the size of boxes it makes. > > Can anyone help me making the pretty heatmap > > I shall be very thankful for your kind help > > Regards > -- James W. MacDonald, M.S. Biostatistician Hildebrandt Lab 8220D MSRB III 1150 W. Medical Center Drive Ann Arbor MI 48109-0646 734-936-8662